How can i use my fastq sequence data for PICRUSt2 analysis?

31 August 2022 0 5K Report

Since the PICRUSt2 requires .fna filetype, i tried to convert my fastq files to fna but after google surfing it seems that there isn't any suitable option for either fastq to fna conversion or using fastq for PICRUSt2. I am interested in standalone analysis of PICRUSt rather than galaxy. Thanks

Badges
Science method

More Md. Ishtiak Rashid's questions See All

How to get onecolumn document from standard IEEE ACCESS LateX template?

I have prepared a manuscript in IEEE Latex template, but for some purpose, I need to prepare a word file as well (detailed format is not required). Compared to two column .tex file, one column...

02 March 2021 1,830 3 View

Is there any effect of different colours of light (white, red, yellow, blue etc.) on the rate of photosynthesis? If yes, why?

Light is inevitable for the process of photosynthesis reaction. Naturally sunlight plays the vital role for this process. Light may be of different colours like white, red, yellow, blue etc....

02 March 2021 7,890 2 View

How does Scientist/RG community evaluates a case study article and the impact of it on a researcher career?

An article that is published as a case study in the SJR listed journal. How much value is added to a researcher career? How it is evaluated by a scientific researcher/University admission...

02 March 2021 9,661 3 View

What kind of food stuff increase the potentiality of human brain?

There are different kinds of food stuffs which we intake daily according to our requirements. Carbohydrate, protein, fat, mineral, vitamin, water are mainly working for the growth and development...

01 March 2021 831 2 View

What is the difference between L1 and L2 regularization in machine learning?

L1 and L2 regularization

28 February 2021 4,187 3 View

How to add missing citation?

Dear colleagues, I have found that many authors have a concern regarding their missing citation in RG because often citation in RG is lower than google scholars. I also missed some citation...

26 February 2021 928 6 View

What is the suitable range of Sulfur content and Viscosity of Heavy fluid Oil that used in Kiln?

What is the disadvantages of high sulfur content to the ceramic burning process? and what is the effect of outranged viscosity?

24 February 2021 8,219 2 View

Can anyone suggest me the best way for Regression analysis of Accidents?

Dear Altruist, I want to make a regression analysis based on accident data. But I am not finding the necessary information about what type of regression is more applicable for analysis accident...

23 February 2021 9,956 3 View

How much cell pressure and back pressure should I apply to start for triaxial test for different types of soil?

We have recently purchased a triaxial test instrument (MATEST) for testing different types of soil. After installing software, we are facing a issue of saturation where the samples does not...

23 February 2021 7,194 4 View

How to assure whether a regression tree overfit or not by seeing bias-variance value of the model?

Lets consider a regression tree in which variance is 1.1065*e-10 and bias is 2.962e-13. Also the model RMSE on training set is 1.5e-5 and on training set is 1.2950e-5. Is the model is overfit or...

22 February 2021 7,755 2 View

Read counts from RNA-Seq paired end reads?

Hello, I have the following question on paired end reads from RNA-seq: To get the total number of obtained reads from paired end reads (2 fastq files are generated (R1, R2), is it correct to add...

01 September 2020 7,715 5 View

MiRNA seq differential analysis?

Hello, I am writing to ask your help in regard to performing differential analysis to analyze miR RNA-seq data. I have miRNA seq data and I have analyzed in the following way- Initial QC - removed...

19 August 2020 5,105 7 View

How to analyze expression of genes using R or galaxy project?

I have more than 500 Datasets of RNA-sequencing data (both FASTA and FASTQ format) and I'd like to analyze gene expression and differentially expressed genes. files with FASTA format are in my PC...

14 July 2020 3,449 3 View

How to Convert large fastq file to fasta?

Hello, I'm new to bioinformatics, my NGS dataset consists of 50 FASTQ files and each file is of size 10-15 GB.. I need to convert these FASTQ files to FASTA files. P.S. I am using google colab I...

02 July 2020 6,224 2 View

Fastq file has number code rather than nucleotide in the sequence, Why?

What's wrong with the following fastq file? Why don't I see any nucleotides? @SRR867022.1 s0205_20091123_4_Boot2_1_2_22_F3...

16 February 2020 7,784 5 View

Fastq file has number code rather than nucleotide in the sequence, Why?

What's wrong with the following fastq file? Why don't I see any nucleotides? @SRR867022.1 s0205_20091123_4_Boot2_1_2_22_F3...

01 February 2020 709 5 View

Dealing with next-gen SSR Microsatellite data from target enrichment experiment?

Hi All, we have a bioinformatics challenge and we would love any help this community can offer. We have data from a target-enrichment experiment that was supposed to capture certain...

09 January 2020 930 3 View

Concatenating pooled sequencing files?

Hi there, I am working on pooled sequencing samples of drosophila. I have three populations. When I first submitted my samples for (paired end) Illumina sequencing, the biotech center informed me...

26 December 2019 2,134 2 View

How to use Local Run Manager Generate FASTQ Analysis Module for BCL to fastq conversion ?

In order to use Local Run Manager Generate FASTQ Analysis Module for conversion of BCL to fastq, is it necessary to create sequencing run with local run manager or it can be done by NCS on...

11 December 2019 6,197 2 View

Concatenating pooled sequencing files?

Hi there, I am working on pooled sequencing samples of drosophila. I have three populations. When I first submitted my samples for (paired end) Illumina sequencing, the biotech center informed me...

11 December 2019 6,318 2 View